From 7bb54008236dba144e7fbab66b71c4ce0a9210fa Mon Sep 17 00:00:00 2001 From: Maxime U Garcia Date: Wed, 16 Oct 2024 14:24:28 +0200 Subject: [PATCH 1/2] Properly disable conda pipeline level tests fix #1415 --- .github/workflows/ci.yml | 22 ++++++++++------------ 1 file changed, 10 insertions(+), 12 deletions(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 799254143..6346287ac 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -66,27 +66,25 @@ jobs: - isMaster: false profile: "singularity" - profile: "conda" - nf_test_files: default.nf.test + nf_test_files: "tests/default.nf.test" - profile: "conda" - nf_test_files: featurecounts_group_type.nf.test + nf_test_files: "tests/featurecounts_group_type.nf.test" - profile: "conda" - nf_test_files: hisat2.nf.test + nf_test_files: "tests/hisat2.nf.test" - profile: "conda" - nf_test_files: kallisto.nf.test + nf_test_files: "tests/kallisto.nf.test" - profile: "conda" - nf_test_files: min_mapped_reads.nf.test + nf_test_files: "tests/min_mapped_reads.nf.test" - profile: "conda" - nf_test_files: nextflow.config + nf_test_files: "tests/remove_ribo_rna.nf.test" - profile: "conda" - nf_test_files: remove_ribo_rna.nf.test + nf_test_files: "tests/salmon.nf.test" - profile: "conda" - nf_test_files: salmon.nf.test + nf_test_files: "tests/skip_qc.nf.test" - profile: "conda" - nf_test_files: skip_qc.nf.test + nf_test_files: "tests/skip_trimming.nf.test" - profile: "conda" - nf_test_files: skip_trimming.nf.test - - profile: "conda" - nf_test_files: star_rsem.nf.test + nf_test_files: "tests/star_rsem.nf.test" steps: - name: Check out pipeline code uses: actions/checkout@0ad4b8fadaa221de15dcec353f45205ec38ea70b # v4 From acae3f780d485336711b597c3a89f4e7e3c61323 Mon Sep 17 00:00:00 2001 From: Maxime U Garcia Date: Wed, 16 Oct 2024 14:27:08 +0200 Subject: [PATCH 2/2] Update CHANGELOG.md --- CHANGELOG.md | 1 + 1 file changed, 1 insertion(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index 7e66dbf01..fe18aecee 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -22,6 +22,7 @@ Special thanks to the following for their contributions to the release: - [PR #1410](https://github.com/nf-core/rnaseq/pull/1410) - Fix issues caused by empty versions from trimming subworkflows - [PR #1412](https://github.com/nf-core/rnaseq/pull/1412) - Reset versions back to 3.16.1 for patch release - [PR #1415](https://github.com/nf-core/rnaseq/pull/1415) - Disable pipeline level conda tests +- [PR #1416](https://github.com/nf-core/rnaseq/pull/1416) - Really disable pipeline level conda tests ### Parameters